jPopGen Suite: population genetic analysis of DNA polymorphism from nucleotide sequences with errors.
jPopGen Suite: population genetic analysis of DNA polymorphism from nucleotide sequences with errors.
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jPopGen Suite：从有错误的核苷酸序列中对 DNA 多态性进行群体遗传分析。
DOI：
10.1111/j.2041-210x.2012.00194.x
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发表时间：
2012
影响因子：
6.6
通讯作者：
Liu,Xiaoming
中科院分区：
文献类型：
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作者：
Liu,Xiaoming
下一代测序（NGS）越来越多地用于生态和进化研究。虽然很有前途，但NGS被认为是容易出错的。测序错误会导致序列样本的群体遗传学分析产生显著的偏倚。2.我们提出了一个集成的工具jPopGen Suite，用于从核苷酸序列中进行DNA多态性的群体遗传学分析。它是专门为具有不可忽略的错误率的数据而设计的，尽管它很好地服务于“无错误”数据。它实现了几种估计群体突变率、群体增长率和进行中性测试的方法。3.jPopGen Suite有助于在各种应用中对NGS数据进行群体遗传分析，非商业用户可以在http://sites.google.com/site/jpopgen/上免费获得。
1.Next‐generation sequencing (NGS) is being increasingly used in ecological and evolutionary studies. Though promising, NGS is known to be error‐prone. Sequencing error can cause significant bias for population genetic analysis of a sequence sample.2.We present jPopGen Suite, an integrated tool for population genetic analysis of DNA polymorphisms from nucleotide sequences. It is specially designed for data with a non‐negligible error rate, although it serves well for ‘error‐free’ data. It implements several methods for estimating the population mutation rate, population growth rate and conducting neutrality tests.3.jPopGen Suite facilitates the population genetic analysis of NGS data in various applications and is freely available for non‐commercial users at http://sites.google.com/site/jpopgen/.